tRNA genes rapidly change in evolution to meet novel translational demands

A Comprehensive tRNA Deletion Library Unravels the Genetic Architecture of the tRNA Pool

(2014) Zohar Bloom-Ackermann et al.   PLoS Genetics

Translational Selection Frequently Overcomes Genetic Drift in Shaping Synonymous Codon Usage Patterns in Vertebrates

(2013) Aoife Doherty et al.   MOLECULAR BIOLOGY AND EVOLUTION

Non-optimal codon usage affects expression, structure and function of clock protein FRQ

(2013) Mian Zhou et al.   NATURE

Overexpression of initiator methionine tRNA leads to global reprogramming of tRNA expression and increased proliferation in human epithelial cells

(2013) M. Pavon-Eternod et al.   RNA

Causes and Effects of N-Terminal Codon Bias in Bacterial Genes

(2013) D. B. Goodman et al.   SCIENCE

Genome-wide Identification and Quantitative Analysis of Cleaved tRNA Fragments Induced by Cellular Stress

(2012) Mridusmita Saikia et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Evolutionary conservation of codon optimality reveals hidden signatures of cotranslational folding

(2012) Sebastian Pechmann et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Vaccinia and influenza A viruses select rather than adjust tRNAs to optimize translation

(2012) M. Pavon-Eternod et al.   NUCLEIC ACIDS RESEARCH

Dynamic changes in translational efficiency are deduced from codon usage of the transcriptome

(2012) Hila Gingold et al.   NUCLEIC ACIDS RESEARCH

tRNA genes in eukaryotic genome organization and reorganization

(2011) Ramsay J. McFarlane et al.   CELL CYCLE

Mutation Bias is the Driving Force of Codon Usage in the Gallus gallus genome

(2011) Y. Rao et al.   DNA RESEARCH

How mutations in tRNA distant from the anticodon affect the fidelity of decoding

(2011) T Martin Schmeing et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Eukaryotic Evolutionary Transitions Are Associated with Extreme Codon Bias in Functionally-Related Proteins

(2011) Nicholas J. Hudson et al.   PLoS One

DendroPy: a Python library for phylogenetic computing

(2010) J. Sukumaran et al.   BIOINFORMATICS

Genomic organization of eukaryotic tRNAs

(2010) Clara Bermudez-Santana et al.   BMC GENOMICS

An Evolutionarily Conserved Mechanism for Controlling the Efficiency of Protein Translation

(2010) Tamir Tuller et al.   CELL

Signatures of protein biophysics in coding sequence evolution

(2010) Claus O Wilke et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Protein folding on the ribosome

(2010) Lisa D Cabrita et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

The Evolution of tRNA Genes in Drosophila

(2010) Hubert H. Rogers et al.   Genome Biology and Evolution

Stable tRNA-based phylogenies using only 76 nucleotides

(2010) J. Widmann et al.   RNA

Eukaryotic initiator tRNA: Finely tuned and ready for action

(2009) Sarah E. Kolitz et al.   FEBS LETTERS

Translationally Optimal Codons Associate with Structurally Sensitive Sites in Proteins

(2009) T. Zhou et al.   MOLECULAR BIOLOGY AND EVOLUTION

The ribosome as a platform for co-translational processing, folding and targeting of newly synthesized proteins

(2009) Günter Kramer et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Transient ribosomal attenuation coordinates protein synthesis and co-translational folding

(2009) Gong Zhang et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Coding-Sequence Determinants of Gene Expression in Escherichia coli

(2009) G. Kudla et al.   SCIENCE

Mistranslation-Induced Protein Misfolding as a Dominant Constraint on Coding-Sequence Evolution

(2008) D. Allan Drummond et al.   CELL

Synonymous Mutations and Ribosome Stalling Can Lead to Altered Folding Pathways and Distinct Minima

(2008) Chung-Jung Tsai et al.   JOURNAL OF MOLECULAR BIOLOGY

Coevolution of Codon Usage and tRNA Genes Leads to Alternative Stable States of Biased Codon Usage

(2008) P. G. Higgs et al.   MOLECULAR BIOLOGY AND EVOLUTION

Misfolded proteins partition between two distinct quality control compartments

(2008) Daniel Kaganovich et al.   NATURE

GtRNAdb: a database of transfer RNA genes detected in genomic sequence

(2008) P. P. Chan et al.   NUCLEIC ACIDS RESEARCH